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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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FASTGenomics Resource Report Resource Website 1+ mentions |
FASTGenomics (RRID:SCR_022898) | production service resource, data analysis service, analysis service resource, service resource | Open online platform for single cell RNA-seq. Provides data management and analytics. Used to analyze public and private datasets and you can choose between several best practices workflows and browse existing analyses. | single cell RNA-seq, data management, data analytics, analyze public and private datasets, best practices workflows | German Federal Ministry of Economic Affairs and Energy | Free, Freely available | https://github.com/FASTGenomics | SCR_022898 | 2026-08-10 09:37:13 | 9 | |||||||||
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VGNC Resource Report Resource Website 10+ mentions |
VGNC (RRID:SCR_017514) | data or information resource, database, service resource | Software resource for vertebrate gene nomenclature. Database of gene symbols. Coordinates with vertebrate nomenclature committees, MGNC (mouse), RGNC (rat), CGNC (chicken), AGNC (Anole green lizard), XNC (Xenopus frog) and ZNC (zebrafish), to ensure genes are named in line with their human homologs. | Vertebrate, gene, nomenclature, data, symbol | is related to: HGNC | NHGRI U24 HG003345; Wellcome Trust |
Free, Freely available | SCR_017514 | Vertebrate Gene Nomenclature Committee | 2026-08-10 09:36:06 | 14 | ||||||||
|
Robot Reviewer Resource Report Resource Website 1+ mentions |
Robot Reviewer (RRID:SCR_018961) | software application, text extraction software, software resource | Software tool as machine learning system that automatically assesses bias in clinical trials. From PDF formatted trial report determines risks of bias for domains defined by Cochrane Risk of Bias (RoB) tool, and extracts supporting text for these judgments. | Automated review, data mining, manuscript screening, artificial intelligence, automatic evidence synthesis, evidence synthesis, trial conduct information, data trial, bias, bias assessement | NLM R01 LM012086; NCI UH2 CA203711; UK Medical Research Council |
PMID:26104742 | Free, Freely available | SCR_018961 | 2026-08-10 09:36:29 | 7 | |||||||||
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Optogenetics Resource Center Resource Report Resource Website 1+ mentions |
Optogenetics Resource Center (RRID:SCR_017513) | data or information resource, database, service resource | Database of different optogenetics resources like hardware, protocols, sequence information. | Optogenetic, data | has parent organization: Stanford University; Stanford; California | Free, Freely available | SCR_017513 | 2026-08-10 09:35:57 | 2 | ||||||||||
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Repbase Resource Report Resource Website 500+ mentions |
Repbase (RRID:SCR_021169) | data or information resource, database | Database of repetitive DNA elements.Database of prototypic sequences representing repetitive DNA from different eukaryotic species. Used in genome sequencing projects worldwide as reference collection for masking and annotation of repetitive DNA. | repetitive DNA elements, prototypic sequences, eukaryotic species, repetitive DNA masking, repetitive DNA annotation, reference collection, FASEB list | is used by: RepeatMasker | SCR_021169 | 2026-08-10 09:36:45 | 942 | |||||||||||
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Estimation Stats Resource Report Resource Website 10+ mentions |
Estimation Stats (RRID:SCR_018321) | production service resource, analysis service resource, service resource | Web application for data analysis and visualizing effect sizes. Data analysis with estimation graphics. | Data analysis, estimation graphics, visualizing effect sizes | PMID:31217592 | Free, Freely available | SCR_018321 | Estimation Statistics | 2026-08-10 09:36:24 | 34 | |||||||||
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Carbohydrate Structure Database Resource Report Resource Website 1+ mentions |
Carbohydrate Structure Database (RRID:SCR_018684) | CSDB | data or information resource, database | Database contains manually curated natural carbohydrate structures, taxonomy, bibliography, NMR data. Bacterial and Plant and Fungal databases were merged to improve quality of content-dependent services, such as taxon clustering or NMR simulation. These separate databases will be supported in parallel until 2020. | Manually curated data, natural carbohydrate structure, carbohydrate taxonomy, carbohydrate bibliography, NMR data, bacterial carbohydrate data, fungal carbohydrate data, taxon clustering | is related to: Bacterial Carbohydrate Structure DataBase | Cooperative Threat Reduction Program of the US Department of Defense ; Russian Foundation for Basic Research ; Russian Science Foundation ; Russian Federation President program ; Deutsches Krebsforschungszentrum |
Free, Freely available | r3d100012862 | https://doi.org/10.17616/R3QZ33 | SCR_018684 | CSDB version 1 | 2026-08-10 09:36:21 | 8 | |||||
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AllFam Resource Report Resource Website 1+ mentions |
AllFam (RRID:SCR_021276) | data or information resource, database | Database for classifying allergenic proteins into protein families.You can browse lists of allergen families restricted by allergen source (plants, animals, fungi, bacteria) and route of exposure (inhalation, ingestion etc.) or search for specific allergens, sources or protein families. Every allergen family entry is linked to description of biochemical properties and allergological significance of family members as well as list of key references related to this family. | Allergen families, allergenic proteins, protein families, allergen source | Free, Freely available | SCR_021276 | AllFam database of allergen families | 2026-08-10 09:36:47 | 4 | ||||||||||
|
trinetx Resource Report Resource Website 100+ mentions |
trinetx (RRID:SCR_022760) | data or information resource, database | Network of healthcare organizations, together with data partners in Brazil, South Korea, and Japan, to bring clinical facts on more than 250 million patients around the world. Federated model so users of this data are ensured new patients, observations, and results every day, all harmonized to standard terminology like ICD-10 and LOINC without any data wrangling required at the point of care. The raw data is not available to authors of papers and papers in medicine are being retracted. | Data, medical data, clinical facts, patients around the world, raw data is not available to authors, papers in medicine are being retracted | Restricted | SCR_022760 | 2026-08-10 09:37:11 | 295 | |||||||||||
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Blood Exposome Database Resource Report Resource Website 10+ mentions |
Blood Exposome Database (RRID:SCR_017610) | data or information resource, database | Collection of chemical compounds and associated information that were automatically extracted by text mining content of PubMed and PubChem databases. Unifies chemical lists from metabolomics, systems biology, environmental epidemiology, occupational expossure, toxiology and nutrition fields. | Chemical, compound, collection, extracted, text, mining, PubMed chemical compounds list, PubChem chemical compounds list, bio.tools |
is listed by: Debian is listed by: bio.tools has parent organization: University of California at Davis; California; USA |
NIAID U54 AI138370; NIA U19 AG023122; NIEHS U2C ES030158 |
PMID:31557052 | Free, Available for download, Freely available | biotools:blood-exposome-db | https://github.com/barupal/exposome, https://bio.tools/blood-exposome-db | SCR_017610 | The Blood Exposome Database, exposome | 2026-08-10 09:35:58 | 11 | |||||
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VDJbase Resource Report Resource Website 10+ mentions |
VDJbase (RRID:SCR_022599) | data or information resource, database | Open source adaptive immune receptor genotype and haplotype database. Core collection is inferred from immune receptor repertoire sequences and genomically derived material. Provides customisable reports, which allow users to study gene and allele usage in various ways. | Adaptive immune receptor genes, genotypes and haplotypes, immune receptor repertoire sequences, customisable reports, gene and allele | European Union ; NIAID R01AI127877; NIAID R01AI125567; NIAID R01AI130398 |
DOI:10.1093/nar/gkz872 | Free, Freely available | SCR_022599 | 2026-08-10 09:37:09 | 11 | |||||||||
|
KEGG PATHWAY Database Resource Report Resource Website 1000+ mentions |
KEGG PATHWAY Database (RRID:SCR_018145) | data or information resource, database, service resource | Reference database for pathway mapping in KEGG Mapper. Collection of manually drawn pathway maps representing knowledge on molecular interaction, reaction and relation networks for metabolism, genetic information processing, environmental information processing, cellular processes, organisms systems, human diseases, drug development. | Pathway mapping, reference database, KEGG Mapper, molecular interaction, reaction and relation network, metabolism, genetic information processing, cellular process, organism system, human disease, drug development, data | is related to: KEGG | Free, Freely available | SCR_018145 | KEGG PATHWAY | 2026-08-10 09:36:23 | 1224 | |||||||||
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BnTIR Resource Report Resource Website 10+ mentions |
BnTIR (RRID:SCR_023021) | data or information resource, database | Searchable database of Brassiceae genomic data hosted on the website. | Brassica napus, transcriptome information, Brassiceae genomic data | National Key Research and Development Plan of China | Free, Freely available | SCR_023021 | Brassica napus Transcriptome Information Resource | 2026-08-10 09:37:16 | 23 | |||||||||
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ALZPEDIA Resource Report Resource Website 1+ mentions |
ALZPEDIA (RRID:SCR_017548) | AlzPedia | data or information resource, database | Collection of brief summaries of various genes and proteins implicated in pathophysiology of Alzheimer’s disease and other neurodegenerative disorders. It will be expanded over time and updated periodically in order to reflect current state of knowledge. | Summary, gene, protein, pathophysiology, Alzheimer, neurodegenerative, disorder | is related to: Alzheimer's Research Forum | Free, Freely available | SCR_017548 | 2026-08-10 09:36:07 | 3 | |||||||||
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Brassicaceae Database Resource Report Resource Website 100+ mentions |
Brassicaceae Database (RRID:SCR_023019) | BRAD | data or information resource, database | Database includes newly released genome sequences of Brassiceae species and published genomic data of most other Brassicaceae species.Data can be browsed in JBrowse or searched in BLAST. Offers service of searching for syntenic genes, which are generated based on their syntenic relationships to genes in Arabidopsis thaliana. Regularly updated with newly released reference genomes. | genome sequences, Brassiceae species, published genomic data, syntenic genes, | National Programon Key Research Project ; National Natural Science Foundation of China |
DOI:10.1093/nar/gkab1057 | Free, Freely available | SCR_023019 | 2026-08-10 09:37:15 | 400 | ||||||||
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ATCC STR database Resource Report Resource Website 1+ mentions |
ATCC STR database (RRID:SCR_019203) | data or information resource, database | Comprehensive database of Short Tandem Repeat DNA profiles for all of ATCC human cell lines. ATCC data collection as part of continuing efforts to characterize and authenticate cell lines in Cell Biology collection. | Short tandem repeat, DNA profile, ATCC human cell line, ATCC data collection | is related to: ATCC | Restricted | SCR_019203 | STR database, Short Tandem Repeat database | 2026-08-10 09:36:29 | 5 | |||||||||
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PanglaoDB Resource Report Resource Website 100+ mentions |
PanglaoDB (RRID:SCR_022580) | data or information resource, database | Database for exploration of single cell RNA sequencing experiments from mouse and human. Collects and integrate data from multiple studies and present them through unified framework. | single cell RNA sequencing experiments, mouse data, human data, single cell RNA sequencing | Karolinska Institutet/AstraZeneca Integrated Cardio Metabolic Centre ; Fondation Leducq—Transantlantic PlaqOmics Network ; Hjärt-och Lungfonden ; Vetenskapsrådet |
PMID:30951143 | Free, Freely available | SCR_022580 | 2026-08-10 09:37:08 | 140 | |||||||||
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Database of genes related to Repeat Expansion Diseases Resource Report Resource Website 1+ mentions |
Database of genes related to Repeat Expansion Diseases (RRID:SCR_018086) | DRED | data or information resource, database, service resource | Database of genes related to Repeat Expansion Diseases, as comprehensive manually curated database that covers all reported repeat expansion diseases included in PubMed and OMIM. Detailed information about each repeat and its related genes/diseases can be found in database, links to OMIM, NCBI and Ensembl are also provided. Provides list of predicted genes containing unstable tandem repeats that may cause diseases via abnormal repeat expansion by support vector machine and random forest. | Gene, repeat expansion disease, unstable tandem repeat, abnormal repeat expansion, data |
works with: OMIM works with: NCBI works with: Ensembl |
Repeat Expansion Diseases | Free, Freely available | SCR_018086 | Database of genes related to Repeat Expansion Diseases | 2026-08-10 09:36:09 | 1 | |||||||
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mqtldb Resource Report Resource Website 10+ mentions |
mqtldb (RRID:SCR_018002) | mqtldb | data or information resource, database | Data collection of large scale genome wide DNA methylation analysis of 1,000 mother-child pairs at serial time points across life course (ARIES). | Data, large scale, genome, DNA methylation, analysis, mother-child pair, serial time point, life course, aeries, methylation, quantitative trait loci, database | DOI:10.1186/s13059-016-0926-z | SCR_018002 | methylation quantitative trait loci database | 2026-08-10 09:36:09 | 47 | |||||||||
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FIVA - Functional Information Viewer and Analyzer Resource Report Resource Website 1+ mentions |
FIVA - Functional Information Viewer and Analyzer (RRID:SCR_005776) | FIVA | software application, data processing software, software resource | Functional Information Viewer and Analyzer (FIVA) aids researchers in the prokaryotic community to quickly identify relevant biological processes following transcriptome analysis. Our software is able to assist in functional profiling of large sets of genes and generates a comprehensive overview of affected biological processes. Currently, seven different modules containing functional information have been implemented: (i) gene regulatory interactions, (ii) cluster of orthologous groups (COG) of proteins, (iii) gene ontologies (GO), (iv) metabolic pathways (v) Swiss Prot keywords, (vi) InterPro domains - and (vii) generic functional categories. Platform: Windows compatible, Mac OS X compatible, Linux compatible, Unix compatible | gene, gene expression, gene expression pattern, functional profile, statistical analysis, metabolic pathway, gene ontology, function, ortholog, gene regulatory interaction, biological process, transcriptome, visualization, analysis |
is listed by: Gene Ontology Tools is related to: Gene Ontology has parent organization: MolGen |
Netherlands Organization for Scientific Research ; industrial partners in the NWO-BMI project number 050.50.206 on Computational Genomics of Prokaryotes ; Center IOP Genomics ; European Union QLK3-CT-2001-01473 |
PMID:17237043 | Free for academic use | nlx_149245 | SCR_005776 | FIVA - Functional Information Viewer Analyzer, Functional Information Viewer and Analyzer (FIVA), Functional Information Viewer and Analyzer | 2026-08-10 09:32:39 | 1 |
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